Variant report

Variant	rs10828173
Chromosome Location	chr10:21294051-21294052
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:21290810..21292703-chr10:21294006..21295597,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10764300	0.92[ASN][1000 genomes]
rs10764301	0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10828174	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10828175	1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs10828176	0.82[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11012479	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs11012483	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11012485	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11012486	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs11012489	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11012491	1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs11012492	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11816130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11817951	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12220884	0.94[ASN][1000 genomes]
rs12248713	0.82[EUR][1000 genomes]
rs16921415	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3858200	0.91[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs45470794	0.80[EUR][1000 genomes]
rs45503098	0.84[EUR][1000 genomes]
rs55647529	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55687305	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56070435	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58448284	0.97[ASN][1000 genomes]
rs6482158	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs661924	0.86[CHB][hapmap];0.81[CHD][hapmap];0.91[JPT][hapmap]
rs7073838	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7079324	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7079790	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72790553	0.94[EUR][1000 genomes]
rs72790563	0.93[EUR][1000 genomes]
rs7896773	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7904906	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7920067	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530148	chr10:21065080-21724565	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21290200-21309200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:21290400-21300400	Weak transcription	Left Ventricle	heart
3	chr10:21290400-21319800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr10:21290600-21311200	Weak transcription	Brain Substantia Nigra	brain
5	chr10:21290800-21305000	Weak transcription	Brain Anterior Caudate	brain
6	chr10:21291000-21299600	Weak transcription	Fetal Heart	heart
7	chr10:21291000-21303800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr10:21291000-21305000	Weak transcription	Brain Angular Gyrus	brain
9	chr10:21292400-21309200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr10:21292600-21308000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr10:21294000-21294200	Enhancers	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links